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Processing and analysis of Small Angle X-ray Scattering (SAXS) data.
BioXTAS RAW is a program for analysis of Small-Angle X-ray Scattering (SAXS) data. The software enables: creation of 1D scattering profiles from 2D detector images, standard data operations such as averaging and subtraction, analysis of radius of gyration (Rg) and molecular weight, and advanced analysis using GNOM and DAMMIF as well as electron density reconstructions using DENSS. It also allows easy processing of inline SEC-SAXS data and data deconvolution using the evolving factor analysis...
Multiscale Neuroscience and Systems Biology Simulator
Moose is the core of a modern software platform for the simulation of neural systems ranging from subcellular components and biochemical reactions to complex models of single neurons, large networks, and systems-level processes.
We have moved Github.com. This should be your source for the latest version of the code.
GENESIS (GEneral NEural SImulation System) is a software platform for the simulation of neural systems ranging from subcellular components and biochemical reactions to complex models of single neurons, large networks, and systems-level processes.
AppSignal's MCP server hands Claude, Cursor, or Zed your real errors, traces, and the deploy that shipped them. AI writes the fix; you review the diff.
trimMate is a tool to remove junction adapters as well as sequencing adapters from mate pair libraries and trim the sequences accordingly. It works on fastq files generated by next generation sequencing (NGS) machines. The release is source code only, please download from version control.
parFE is fully-parallel high-performance finite element code targeted to the modeling of trabecular bones in humans. It employs scalable multigrid solvers for efficient solutions on massively parallel computers.
MOVED TO GITHUB: https://github.com/noporpoise/seq-align
Global optimal sequence alignment using the Needleman-Wunsch algorithm.
Aligns DNA, RNA, protein sequence and more!
See our sister project local alignment using Smith-Waterman:
http://sourceforge.net/projects/smithwaterman/
MOVED TO GITHUB: https://github.com/noporpoise/seq-align
An implementation of the Smith-Waterman local sequence alignment algorithm.
See our sister project global alignment using Needleman-Wunsch:
http://sourceforge.net/projects/needlemanwunsch/
Parsers for biological data based on scanner generators like Flex (C), Re2c(C), Jflex (Java) and Ifickle (Tcl). This scanner generators are providing easier maintainance, development and higher speed than hand written scanners. Scanner output is SQL.
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